TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1903/-:

update plot	correlation	link to info on gene
Rv1508A/-	(cc=0.5065)	info on Rv1508A/-
Rv1678/-	(cc=0.4691)	info on Rv1678/-
Rv2309c/-	(cc=0.463)	info on Rv2309c/-
Rv1980c/mpt64	(cc=0.4383)	info on Rv1980c/mpt64
Rv2663/-	(cc=0.4368)	info on Rv2663/-
Rv2778c/-	(cc=0.4353)	info on Rv2778c/-
Rv1928c/-	(cc=0.4351)	info on Rv1928c/-
Rv1804c/-	(cc=0.4186)	info on Rv1804c/-
Rv0799c/-	(cc=0.4136)	info on Rv0799c/-
Rv2425c/-	(cc=0.4124)	info on Rv2425c/-

Correlation of Rv1903/- with Rv1928c/-

Normalized LFCs for Rv1903/-:
(description and provenance of datasets)

	Rv1903/-	Rv1928c/-
Fe_supp_jason_reseq	-0.494	0.906
low_pH_jason_reseq	0.201	0.204
NO_jason_reseq	0.326	0.278
B6_jason_reseq	0.009	-0.108
MHCII_jason_reseq	-0.026	0.555
Isoniazid02	-0.428	0.672
Rifampicin4	0.715	0.401
Ethambutol3	0.736	0.598
Meropenem3	0.062	0.559
Vancomycin16	-0.377	-0.154
Rv2680_day32	-0.724	-0.1
H37Rv_KO_MarP	0.007	0.111
hypoxia_3wks	0.108	0.207
hypoxia_6wks	0.42	0.768
glycerol	0.853	-0.262
cholesterol	0.798	0.606
AJ	0.272	-0.171
Bibs02	0.685	-0.821
Bibs02c	0.72	0.103
BL6	0.643	0.823
BL6a	0.994	0.821
BXD01	0.498	0.583
BXD010	0.819	0.468
BXD011	0.688	0.998
BXD03	0.833	0.853
BXD04	0.019	0.695
BXD05	1.199	1.112
BXD06	0.051	0.722
BXD07	0.645	0.963
BXD08	0.246	0.77
BXD09	1.085	1.033
CAST	1.151	0.337
CCcont	0.138	0.344
DS01	-0.334	0.132
DS02	-0.087	-1.284
DS04	-0.446	-0.829
DS0c	0.478	0.277
GP01	0.354	0.132
GP02	-0.653	-0.278
GP0c	0.286	0.322
NOD	0.026	0.371
NZO	-0.692	0.191
PWK	0.456	0.406
H37Rv_KO_CtpC	1.599	1.454
H37Rv_KO_CtpD	2.544	0.975
H37Rv_KO_Rv1272	1.104	0.89
H37Rv_KO_SugABC	-2.204	-0.014
H37Rv_KO_MbtN	0.75	0.786
Trans05	1.641	0.65
macrophage_unactivated	-0.679	-0.193
IL1	0.872	0.053
Rapamycin	0.457	0.531
Tcell	0.531	-0.199
GMCSF	1.249	0.486
IFNab	-0.227	-0.514
IFNg	0.668	0.799
IFNg_GMCSF1	-0.339	0.528
Rv1432_day32	0.87	0.385
Rv1565c_day32	0.504	0.565
secA2_input	-1.28	-1.384
delta_Rv3594	0.069	0.751
delta_Rv3717	-0.255	0.484
delta_Rv3811	0.529	0.854
delta_Rv0954	0.121	0.147
PonA1	0.092	0.89
EccD1_KO	0.579	-0.566
EspI_KO	0.707	0.405
PE35_KO	-0.131	0.187
PPE68_KO	0.659	0.547
glycerol2	0.448	0.275
lignocerate	0.756	0.349
oleate	0.069	0.58
phosphatidylcholine	0.448	0.385
acetate	0.687	-0.013
glucAc	0.922	-0.091
Rv0950ko	0.214	0.335
Rv1096ko	-1.227	-0.326
Rv3684ko	-0.026	0.203
delta_otsA_trehalose	-0.832	1.056